SangerAlignment Level

SangerContig Level

SangerRead Level

Basic Information:

  • Output Directory : /Users/camilogarcia/Documents/Teaching/BiologyCourses/BI0487/Lectures/biocomp-book/chs-challenges-demos/data/sanger-processed/SangerAlignment
  • Input Source : ABIF
  • Process Method : REGEX
  • Input ABIF Directory : data/sanger-seqs/rpoB/
  • Forward Reads Suffix Regex : rpoB_1_F.ab1
  • Reverse Reads Suffix Regex : rpoB_2_R.ab1

Contigs Consensus

Primary Sequence


Contigs Alignment

                                   20                  40                  60                  80                 100                 120                 140                 160                 180                 200                 220                 240                 260                 280                 300                 320                 340                 360                 380                 400                 420                 440                 460                 480                 500                 520                 540                 560                 580                 600                 620                 640                 660                 680                 700                 720                 740                 760                 780                 800                 820                 840                 860                 880                 900                 920                 940                 960                 980                1000                1020                1040                1060                1080                1100        
                 '''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''''''''|'''        
      302_WT_    -------------TTTTTTTTTTTTTTTTTTGGGGGGGAGTA--ATTGAAGCCATCATCATGAGTGAACGTCTTGKKRAGGATGATGTTTATACATCTATCCATATTGAAGAATATGAATCAGAAGCACGTGATACGAAACTTGGACCTGAAGAAATCACTCGCGATATTCCAAACGTCGGTGAAGATGCGCTTCGCAATCTTGATGACCGCGGAATCATCCGTATTGGGGCAGAAGTAAAAGACGGAGATCTTCTTGTTGGTAAAGTAACGCCTAAAGGTGTAACCGAACTGACTGCTGAAGAACGCCTTCTTCACGCCATCTTTGGTGAAAAAGCCCGCGAGGTTCGTGATACTTCTCTTCGTGTGCCTCACGGCGGCGGCGGAATTATCCACGACGTTAAAGTCTTCAACCGTGAAGACGGAGACGAACTTCCTCCAGGTGTAAACCAGTTGGTACGCGTATATATCGTTCAGAAACGTAAGATTTCTGAAGGGGATAAAATGGCCGGTCGTCACGGTAACAAAGGTGTTATCTCTAAGATTCTTCCTGAAGAGGATATGCCTTACCTTCCTGACGGCACACCAATTGACATCATGCTTAACCCGCTGGGCGTACCATCACGTATGAACATCGGGCAGGTATTGGAGCTTCATATGGGTATGGCCGCTCGTTACCTCGGCATTCACATTGCGTCTCCWGTATTTGATGGAGCGCGAGAAGAGGATGTTTGGGAAACACTTGAAGAAGCCGGCATGTCTCGTGACGCCAAAACGGTGCTTTACGACGGACGTACTGGAGAGCCGTTTGATAACCGCGTGTCTGTCGGTATCATGTACATGATCAAACTGGCACACATGGTTGACGATAAACTTCATGCACGCTCTACAGGTCCTTACTCACTTGTTACGCAGCAGCCTCTTGGCGGTAAAGCGCAATTTGGCGGACAGCGTTTKKGWGARWKGRAGGTTTGGGCACTTGAAGCTTATGGTGCAGCTTACACTCTTCAAGAAATTCTGACTGTTAAGTCCGATAACGTGGTTGGACGTGTGAAACTACACCTCA-TGGCACAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAA    1087    
      321_WT_    --------------------------------------------TGAGGAGCCATCATCATGAGTGAACGTCTTGTGAAGGATGATGTTTATACATCTATCCATATTGAAGAATATGAATCAGAAGCACGTGATACGAAACTTGGACCTGAAGAAATCACTCGCGATATTCCAAACGTCGGTGAAGATGCGCTTCGCAATCTTGATGACCGCGGAATCATCCGTATTGGGGCAGAAGTAAAAGACGGAGATCTTCTTGTTGGTAAAGTAACGCCTAAAGGTGTAACCGAACTGACTGCTGAAGAACGCCTTCTTCACGCCATCTTTGGTGAAAAAGCCCGCGAGGTTCGTGATACTTCTCTTCGTGTGCCTCACGGCGGCGGCGGAATTATCCACGACGTTAAAGTCTTCAACCGTGAAGACGGAGACGAACTTCCTCCAGGTGTAAACCAGTTGGTACGCGTATATATCGTTCAGAAACGTAAGATTTCTGAAGGGGATAAAATGGCCGGTCGTCACGGTAACAAAGGTGTTATCTCTAAGATTCTTCCTGAAGAGGATATGCCTTACCTTCCTGACGGCACACCAATTGACATCATGCTTAACCCGCTGGGCGTACCATCACGTATGAACATCGGGCAGGTATTGGAGCTTCATATGGGTATGGCCGCTCGTTACCTCGGCATTCACATTGCGTCTCCWGTATTTGATGGAGCGCGAGAAGAGGATGTTTGGGAAACACTTGAAGAAGCCGGCATGTCTCGTGACGCCAAAACGGTGCTTTACGACGGACGTACTGGAGAGCCGTTTGATAACCGCGTGTCTGTCGGTATCATGTACATGATCAAACTGGCACACATGGTTGACGATAAACTTCATGCACGCTCTACAGGTCCTTACTCACTTGTTACGCAGCAGCCTCTTGGCGGTAAAGCGCAATTTGGCGGACAGCGTTTTGGTGAGATGGWRGTTTGGGCACTTGAAGCTTATGGTGCAGCTTACACTCTTCAAGAAATTCTGACTGTTAAGTCCGATAACTTGATTGGACGTGTGAAACTACATCTCTCTGGCACAAAAAAAAAAAAAAAAAAAAAAAAAAAA---    1056    
      455_WT_    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGGGGGGGGAGAACTTGAGGATCCATCATCATGAGTGAACGTCTTGTGAAGGATGATGTTTATACATCTATCCATATTGAAGAATATGAATCAGAAGCACGTGATACGAAACTTGGACCTGAAGAAATCACTCGCGATATTCCAAACGTCGGTGAAGATGCGCTTCGCAATCTTGATGACCGCGGAATCATCCGTATTGGGGCAGAAGTAAAAGACGGAGATCTTCTTGTTGGTAAAGTAACGCCTAAAGGTGTAACCGAACTGACTGCTGAAGAACGCCTTCTTCACGCCATCTTTGGTGAAAAAGCCCGCGAGGTTCGTGATACTTCTCTTCGTGTGCCTCACGGCGGCGGCGGAATTATCCACGACGTTAAAGTCTTCAACCGTGAAGACGGAGACGAACTTCCTCCAGGTGTAAACCAGTTGGTACGCGTATATATCGTTCAGAAACGTAAGATTTCTGAAGGGGATAAAATGGCCGGTCGTCACGGTAACAAAGGTGTTATCTCTAAGATTCTTCCTGAAGAGGATATGCCTTACCTTCCTGACGGCACACCAATTGACATCATGCTTAACCCGCTGGGCGTACCATCACGTATGAACATCGGGCAGGTATTGGAGCTTCATATGGGTATGGCCGCTCGTTACCTCGGCATTCACATTGCGTCTCCTGTATTTGATGGAGCGCGAGAAGAGGATGTTTGGGAAACACTTGAAGAAGCCGGCATGTCTCGTGACGCCAAAACGGTGCTTTACGACGGACGTACTGGAGAGCCGTTTGATAACCGCGTGTCTGTCGGTATCATGTACATGATCAAACTGGCACACATGGTTGACGATAAACTTCATGCACGCTCTACAGGTCCTTACTCACTTGTTACGCAGCAGCCTCTTGGCGGTAAAGCGCAATTTGGCGGACAGCGTTTTGGTGAGATGGAGGTTTGGGCACTTGAAGCTTATGGTGCAGCTTACACTCTTCAAGAAATTCTGACTGTTAAGTCCGATGACGTGGTTGGACGTGTGAAACTACACTGTGGGGGGGGGAAAAAAAAAAAAAAAAAAAAA---------    1094    
                         
    Consensus    TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTKGGGGGGGAGWA++WKWGRAKCCATCATCATGAGTGAACGTCTTGKKRAGGATGATGTTTATACATCTATCCATATTGAAGAATATGAATCAGAAGCACGTGATACGAAACTTGGACCTGAAGAAATCACTCGCGATATTCCAAACGTCGGTGAAGATGCGCTTCGCAATCTTGATGACCGCGGAATCATCCGTATTGGGGCAGAAGTAAAAGACGGAGATCTTCTTGTTGGTAAAGTAACGCCTAAAGGTGTAACCGAACTGACTGCTGAAGAACGCCTTCTTCACGCCATCTTTGGTGAAAAAGCCCGCGAGGTTCGTGATACTTCTCTTCGTGTGCCTCACGGCGGCGGCGGAATTATCCACGACGTTAAAGTCTTCAACCGTGAAGACGGAGACGAACTTCCTCCAGGTGTAAACCAGTTGGTACGCGTATATATCGTTCAGAAACGTAAGATTTCTGAAGGGGATAAAATGGCCGGTCGTCACGGTAACAAAGGTGTTATCTCTAAGATTCTTCCTGAAGAGGATATGCCTTACCTTCCTGACGGCACACCAATTGACATCATGCTTAACCCGCTGGGCGTACCATCACGTATGAACATCGGGCAGGTATTGGAGCTTCATATGGGTATGGCCGCTCGTTACCTCGGCATTCACATTGCGTCTCCWGTATTTGATGGAGCGCGAGAAGAGGATGTTTGGGAAACACTTGAAGAAGCCGGCATGTCTCGTGACGCCAAAACGGTGCTTTACGACGGACGTACTGGAGAGCCGTTTGATAACCGCGTGTCTGTCGGTATCATGTACATGATCAAACTGGCACACATGGTTGACGATAAACTTCATGCACGCTCTACAGGTCCTTACTCACTTGTTACGCAGCAGCCTCTTGGCGGTAAAGCGCAATTTGGCGGACAGCGTTTKKGWGARWKGRWRGTTTGGGCACTTGAAGCTTATGGTGCAGCTTACACTCTTCAAGAAATTCTGACTGTTAAGTCCGATRACKTGRTTGGACGTGTGAAACTACAYYKYD+KGGSRSRRAAAAAAAAAAAAAAAAAAAAAAAAAAAAA    1103

Contigs Tree



Contigs Reports